Mercurial > repos > jjohnson > snpsift

view readme.rst @ 4:baf6602903e1

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author jjohnson
date Wed, 09 Dec 2015 14:03:26 -0500
parents 1ae5526db990
children
line wrap: on
line source

These are galaxy tools for SnpEff a variant annotation and effect prediction tool by Pablo Cingolani. 
It annotates and predicts the effects of variants on genes (such as amino acid changes).
( http://snpeff.sourceforge.net/ )

This repository contains a tool_dependencies.xml file that will attempt to automatically install SnpEff and SnpSift.   

SnpEff citation:
"A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.", Cingolani P, Platts A, Wang le L, Coon M, Nguyen T, Wang L, Land SJ, Lu X, Ruden DM. Fly (Austin). 2012 Apr-Jun;6(2):80-92. PMID: 22728672 [PubMed - in process]

SnpSift citation:
"Using Drosophila melanogaster as a model for genotoxic chemical mutational studies with a new program, SnpSift", Cingolani, P., et. al., Frontiers in Genetics, 3, 2012.